Ecosyste.ms: Papers

An open API service providing mapping between scientific papers and software projects that are mentioned in them.
All mentions data is based on the CZI Software Mentions dataset.

Projects: bioconductor: edgeR

https://packages.ecosyste.ms/registries/bioconductor.org/packages/edgeR

Empirical Analysis of Digital Gene Expression Data in R
3 versions
Latest release: about 1 year ago
166 dependent packages
2,704,225 downloads total

Papers Mentioning edgeR 6,568

10.1186/s12870-019-1940-6
RNA sequencing analysis of Cymbidium goeringii identifies floral scent biosynthesis related genes
Cited by: 32
Author(s): Mummadireddy Ramya, Pue Hee Park, Yu Chen Chuang, Oh Keun Kwon, Hye Ryun An, Pil Man Park, Yun Su Baek, Byoung Chorl Kang, Wen Chieh Tsai, Hong Hwa Chen
Software Mentions: 1
Published: over 5 years ago
10.3389/fpls.2017.00317
Transcriptome Changes Associated with Boron Deficiency in Leaves of Two Citrus Scion-Rootstock Combinations
Cited by: 12
Author(s): Xiao Liu, Jiawei Zhang, Ling-Xia Guo, Yong-Zhong Liu, Long-Fei Jin, Syed Bilal Hussain, Wei Du, Zhao Deng, Shuang Peng
Software Mentions: 1
Published: over 7 years ago
10.1186/s12870-017-1135-y
Comparative transcriptomic analyses of normal and malformed flowers in sugar apple (Annona squamosa L.) to identify the differential expressed genes between normal and malformed flowers
Cited by: 13
Author(s): Kaidong Liu, Haili Li, Weijin Li, Jun Zhong, Chen Yan, Chenjia Shen, Changchun Yuan
Software Mentions: 1
Published: about 7 years ago
10.3389/fpls.2015.01179
Transcriptomic Analysis Reveals Key Genes Related to Betalain Biosynthesis in Pulp Coloration of Hylocereus polyrhizus
Cited by: 36
Author(s): Qian Hua, Chengjie Chen, Zhe Chen, Pengkun Chen, Ma Ying, Jingyu Wu, Jian Zheng, Guibing Hu, Jietang Zhao, Yonghua Qin
Software Mentions: 1
Published: almost 9 years ago
10.3390/ijms17050690
Optimizing Hybrid de Novo Transcriptome Assembly and Extending Genomic Resources for Giant Freshwater Prawns (Macrobrachium rosenbergii): The Identification of Genes and Markers Associated with Reproduction
Cited by: 19
Author(s): Hyungtaek Jung, Byung-Ha Yoon, Woo Jin Kim, Dong-Wook Kim, David A. Hurwood, Russell E. Lyons, Krishna R. Salin, Heui‐Soo Kim, Ilseon Baek, Vincent Chand, Peter B. Mather
Software Mentions: 1
Published: over 8 years ago
10.1186/s12870-019-1641-1
Flax (Linum usitatissimum L.) response to non-optimal soil acidity and zinc deficiency
Cited by: 18
Author(s): Alexey A. Dmitriev, George S. Krasnov, Tatiana A. Rozhmina, Alexander V. Zyablitsin, Anastasiya V. Snezhkina, Maria S. Fedorova, Elena N. Pushkova, Parfait Kezimana, Roman O. Novakovskiy, Liubov V. Povkhova, М. И. Смирнова, О. В. Муравенко, Nadezhda L. Bolsheva, Anna V. Kudryavtseva, Nataliya V. Melnikova
Software Mentions: 1
Published: almost 6 years ago
10.1186/s12870-019-2134-y
Wheat straw increases the defense response and resistance of watermelon monoculture to Fusarium wilt
Cited by: 14
Author(s): Lili Tang, Shaorui Nie, Wenhui Li, Chao Fan, Siqi Wang, Fengzhi Wu, Kaiwen Pan
Software Mentions: 1
Published: almost 5 years ago
10.1186/s12870-015-0537-y
The effect of red light and far-red light conditions on secondary metabolism in Agarwood
Cited by: 31
Author(s): Tony Kuo, Chuan-Hung Chen, Shu-Hwa Chen, I-Hsuan Lu, Mei-Ju Chu, Li-Chun Huang, Chung‐Yen Lin, Chien‐Yu Chen, Hsiao-Feng Lo, Shih‐Tong Jeng, Long‐Fang O. Chen
Software Mentions: 1
Published: over 9 years ago
10.3389/fpls.2021.713814
The Response of Grain Yield and Root Morphological and Physiological Traits to Nitrogen Levels in Paddy Rice
Cited by: 8
Author(s): Xin Wei, Hualong Liu, Hongwei Zhao, Jingguo Wang, Hongliang Zheng, Yan Jia, Liuqing Yang, Xinpeng Wang, Jiaming Li, Xianwei Li, Lei Lei, Detang Zou
Software Mentions: 1
Published: about 3 years ago
10.3390/ijms17101612
Elevated Expression of Calpain-4 Predicts Poor Prognosis in Patients with Gastric Cancer after Gastrectomy
Cited by: 5
Author(s): Peike Peng, Lingqiang Min, Shushu Song, Junjie Zhao, Lili Li, Caiting Yang, Miaomiao Shao, Mingming Zhang, Hao Wu, Jie Zhang, Can Li, Xuefei Wang, Hongshan Wang, Jing Qin, Yuanyuan Ruan, Jianxin Gu
Software Mentions: 1
Published: about 8 years ago
10.1186/s12870-019-2037-y
Water-deficit responsive microRNAs in the primary root growth zone of maize
Cited by: 17
Author(s): Candace M. Seeve, Ramanjulu Sunkar, Yun Zheng, Li Liu, Zhijie Liu, Michael D. McMullen, Sven K. Nelson, Robert E. Sharp, Melvin J. Oliver
Software Mentions: 1
Published: about 5 years ago
10.1093/gbe/evu035
Complete Dosage Compensation and Sex-Biased Gene Expression in the Moth Manduca sexta
Cited by: 51
Author(s): G. Troy Smith, Yun‐Ru Chen, Gary W. Blissard, Adriana D. Briscoe
Software Mentions: 1
Published: almost 11 years ago
10.1186/1471-2229-11-177
Genome-wide transcriptome analysis of gametophyte development in Physcomitrella patens
Cited by: 38
Author(s): Li Xiao, Hui Wang, Wan Park, Tingyun Kuang, Yulong He
Software Mentions: 1
Published: almost 13 years ago
10.3389/fpls.2017.00492
De novo Transcriptome Analysis of Miscanthus lutarioriparius Identifies Candidate Genes in Rhizome Development
Cited by: 15
Author(s): Ruibo Hu, Changjiang Yu, Xiaoyu Wang, Chunlin Jia, Shengqiang Pei, Kang He, He Guo, Yingzhen Kong, Gongke Zhou
Software Mentions: 1
Published: over 7 years ago
10.1371/journal.pone.0141390
Mantle Branch-Specific RNA Sequences of Moon Scallop Amusium pleuronectes to Identify Shell Color-Associated Genes
Cited by: 9
Author(s): Ronglian Huang, Zhe Zheng, Qingheng Wang, Xiyang Zhao, Yuewen Deng, Yu Jiao, Xiaodong Du
Software Mentions: 1
Published: about 9 years ago
10.1186/s12870-021-03119-x
The core autophagy machinery is not required for chloroplast singlet oxygen-mediated cell death in the Arabidopsis thaliana plastid ferrochelatase two mutant
Cited by: 16
Author(s): Matthew D. Lemke, Karen E. Fisher, Marta A. Kozlowska, David W. Tano, Jesse D. Woodson
Software Mentions: 1
Published: over 3 years ago
10.3389/fpls.2016.00163
Transcriptome Analysis Identifies Candidate Genes Related to Triacylglycerol and Pigment Biosynthesis and Photoperiodic Flowering in the Ornamental and Oil-Producing Plant, Camellia reticulata (Theaceae)
Cited by: 26
Author(s): Qiu-Yang Yao, Hui Huang, Yan Tong, Enhua Xia, Li‐Zhi Gao
Software Mentions: 1
Published: almost 9 years ago
10.1093/gbe/evv132
Evolutionary Divergence of Gene and Protein Expression in the Brains of Humans and Chimpanzees
Cited by: 40
Author(s): Amy L. Bauernfeind, Erik J. Soderblom, Meredith Turner, M. Arthur Moseley, John J. Ely, Patrick R. Hof, Chet C. Sherwood, Gregory A. Wray, Courtney C. Babbitt
Software Mentions: 1
Published: over 9 years ago
10.3390/ijms17111951
Transcriptome Analysis of mRNA and miRNA in Somatic Embryos of Larix leptolepis Subjected to Hydrogen Treatment
Cited by: 15
Author(s): Yali Liu, Sang‐Mi Han, Xiangming Ding, Xinmin Li, Lifeng Zhang, Wanfeng Li, Haiyan Xu, Zhexin Li, Qi Liu
Software Mentions: 1
Published: about 8 years ago
10.3389/fpls.2016.01194
Temporal-Spatial Transcriptome Analyses Provide Insights into the Development of Petaloid Androecium in Canna indica
Cited by: 8
Author(s): Xueyi Tian, Qianxia Yu, Huanfang Liu, Jingping Liao
Software Mentions: 1
Published: over 8 years ago
10.1186/1755-8794-6-43
Association of candidate single nucleotide polymorphisms with somatic mutation of the epidermal growth factor receptor pathway
Cited by: 9
Author(s): Samuel Wormald, Liz Milla, Liam O’Connor
Software Mentions: 1
Published: about 11 years ago
10.3390/ijms20174117
Transcriptome Profiling Provides Insight into the Genes in Carotenoid Biosynthesis during the Mesocarp and Seed Developmental Stages of Avocado (Persea americana)
Cited by: 17
Author(s): Yu Ge, Zhihao Cheng, Xiongyuan Si, Wei Ma, Lin Tan, Xiaoping Zang, Bin Wu, Zining Xu, Nan Wang, Zhaoxi Zhou, Xiao Lin, Xiangshu Dong, Rulin Zhan
Software Mentions: 1
Published: over 5 years ago
10.1093/gbe/evaa206
The Evolution of Phenotypic Plasticity in Response to Temperature Stress
Cited by: 27
Author(s): François Mallard, Viola Nolte, Christian Schlötterer
Software Mentions: 1
Published: about 4 years ago
10.1371/journal.pone.0211182
Screening of the candidate genes related to low-temperature tolerance of Fenneropenaeus chinensis based on high-throughput transcriptome sequencing
Cited by: 13
Author(s): Xianhong Meng, Lijun Dong, Xiaoli Shi, Xupeng Li, Juan Sui, Kun Luo, Sheng Luan, Baolong Chen, Baoxiang Cao, Jiawang Cao, Jie Kong
Software Mentions: 1
Published: over 5 years ago
10.1093/gbe/evab023
Divergence in Coding Sequence and Expression of Different Functional Categories of Immune Genes between Two Wild Rodent Species
Cited by: 3
Author(s): Xianqiong Zhong, Max Lundberg, Lars Råberg
Software Mentions: 1
Published: almost 4 years ago
10.1016/j.xplc.2021.100164
The Xa7 resistance gene guards the rice susceptibility gene SWEET14 against exploitation by the bacterial blight pathogen
Cited by: 25
Author(s): Dangping Luo, José C. Huguet‐Tapia, R. Taylor Raborn, Frank F. White, Volker Brendel, Bing Yang
Software Mentions: 1
Published: over 3 years ago
10.3390/ijms21176017
Integrated Analysis of Small RNA, Transcriptome, and Degradome Sequencing Reveals the Water-Deficit and Heat Stress Response Network in Durum Wheat
Cited by: 25
Author(s): Haipei Liu, Amanda J. Able, Jason A. Able
Software Mentions: 1
Published: over 4 years ago
10.1186/s12870-019-2001-x
Comparative analysis of proso millet (Panicum miliaceum L.) leaf transcriptomes for insight into drought tolerance mechanisms
Cited by: 25
Author(s): Yuyu Zhang, Xiaoli Gao, Jing Li, Xiangwei Gong, Pu Yang, Jinfeng Gao, Pengke Wang, Baili Feng
Software Mentions: 1
Published: about 5 years ago
10.3390/plants9060713
Transcriptome and Network Analyses of Heterostyly in Turnera subulata Provide Mechanistic Insights: Are S-Loci a Red-Light for Pistil Elongation?
Cited by: 8
Author(s): Paige M. Henning, Joel S. Shore, Andrew G. McCubbin
Software Mentions: 1
Published: over 4 years ago
10.3389/fpls.2021.684987
Transcriptome Analysis of Chloris virgata, Which Shows the Fastest Germination and Growth in the Major Mongolian Grassland Plant
Cited by: 1
Author(s): Byambajav Bolortuya, Syutaro Kawabata, Ayumi Yamagami, Bekh Ochir Davaapurev, Fumiyuki Takahashi, Komaki Inoue, Asaka Kanatani, Keiichi Mochida, Minoru Kumazawa, Kentaro Ifuku, Sodnomdarjaa Jigjidsuren, Tugsjargal Battogtokh, Udval Gombosuren, Kazuo Shinozaki, Tadao Asami, Javzan Batkhuu, Takeshi Nakano
Software Mentions: 1
Published: over 3 years ago
10.3390/ijms21186493
Transcriptome Analysis of Testis from HFD-Induced Obese Rats (Rattus norvigicus) Indicated Predisposition for Male Infertility
Cited by: 6
Author(s): Ahmed M. El-Shehawi, Samir Ahmed El-Shazly, Mohamed M. Ahmed, Mohamed Alkafafy, Samy Sayed, Samy Farouk, Saqer S. Alotaibi, Mona M. Elseehy
Software Mentions: 1
Published: about 4 years ago
10.3389/fpls.2020.00728
Identification of Known and Novel MicroRNAs in Raspberry Organs Through High-Throughput Sequencing
Cited by: 5
Author(s): Gengxuan Yan, Jie Zhang, Meng Jiang, Xince Gao, Hongyi Yang, Lili Li
Software Mentions: 1
Published: over 4 years ago
10.1186/s12870-020-02638-3
Comparative transcriptome analysis suggests convergent evolution of desiccation tolerance in Selaginella species
Cited by: 8
Author(s): Gerardo Alejo‐Jacuinde, Sandra Isabel González-Morales, Araceli Oropeza-Aburto, June Simpson, Luis Herrera-Estrella
Software Mentions: 1
Published: about 4 years ago
10.3390/plants9040540
Transcriptome Profiling of Ornithogalum dubium Leaves and Flowers to Identify Key Carotenoid Genes for CRISPR Gene Editing
Cited by: 9
Author(s): Zunzheng Wei, Tzahi Arazi, Nofar Hod, Matat Zohar, Tal Isaacson, Adi Doron‐Faigenboim, Noam Reznik, Iris Yedidia
Software Mentions: 1
Published: over 4 years ago
10.3390/ijms18102119
Transforming Growth Factor-β Drives the Transendothelial Migration of Hepatocellular Carcinoma Cells
Cited by: 16
Author(s): Petra Koudelková, Victor Costina, Gerhard Weber, Steven Dooley, Peter Findeisen, Peter Winter, Rahul Agarwal, Karin Schlangen, Wolfgang Mikulits
Software Mentions: 1
Published: about 7 years ago
10.3390/ijms21197251
Inhibitory Effect of a Human MicroRNA, miR-6133-5p, on the Fibrotic Activity of Hepatic Stellate Cells in Culture
Cited by: 8
Author(s): Susumu Hamada-Tsutsumi, Mai Onishi, Kiyotaka Matsuura, Masanori Isogawa, Keigo Kawashima, Yusuke Sato, Yasuhito Tanaka
Software Mentions: 1
Published: about 4 years ago
10.3389/fpls.2021.700651
Transcription Factor GmWRKY46 Enhanced Phosphate Starvation Tolerance and Root Development in Transgenic Plants
Cited by: 9
Author(s): Li Cheng, Kangning Li, Xinyi Liu, Hui Ruan, Min Zheng, Zhijie Yu, Junyi Gai, Shouping Yang
Software Mentions: 1
Published: about 3 years ago
10.1186/s13073-018-0548-z
Integrative analysis of DNA methylation and gene expression reveals hepatocellular carcinoma-specific diagnostic biomarkers
Cited by: 76
Author(s): Ju Chien Cheng, Dongkai Wei, Yuan Ji, Lingli Chen, Liguang Yang, Guang Li, Leilei Wu, Ting Hou, Lu Xie, Guohui Ding, Hong Li, Yixue Li
Software Mentions: 1
Published: over 6 years ago
10.3390/ijms18112253
Comparative Transcriptomic Analysis Reveals Candidate Genes and Pathways Involved in Larval Settlement of the Barnacle Megabalanus volcano
Cited by: 11
Author(s): Guoyong Yan, Gen Zhang, Junzhe Huang, Yi Lan, Jin Sun, Cong Zeng, Yong Wang, Pei‐Yuan Qian, Lisheng He
Software Mentions: 1
Published: about 7 years ago
10.3389/fpls.2016.01953
Comparative Transcriptome Analysis between Gynoecious and Monoecious Plants Identifies Regulatory Networks Controlling Sex Determination in Jatropha curcas
Cited by: 27
Author(s): Maosheng Chen, Bang-Zhen Pan, Qi Fu, Yongfu Tao, Jorge Martínez‐Herrera, Longjian Niu, Jun Ni, Yi Dong, Miaomiao Zhao, Zeng-Fu Xu
Software Mentions: 1
Published: almost 8 years ago
10.3389/fpls.2017.01671
Strigolactones Improve Plant Growth, Photosynthesis, and Alleviate Oxidative Stress under Salinity in Rapeseed (Brassica napus L.) by Regulating Gene Expression
Cited by: 115
Author(s): Ning Ma, Chao Hu, Lin Wan, Qiong Hu, Jie Xiong, Chunlei Zhang
Software Mentions: 1
Published: about 7 years ago
10.3389/fpls.2017.00319
Comparative Transcriptome Reveals Benzenoid Biosynthesis Regulation as Inducer of Floral Scent in the Woody Plant Prunus mume
Cited by: 23
Author(s): Kai Zhao, Weiru Yang, Yuzhen Zhou, Jie Zhang, Yushu Li, Sagheer Ahmad, Qixiang Zhang
Software Mentions: 1
Published: over 7 years ago
10.3390/ijms18112433
RNA Sequencing and Coexpression Analysis Reveal Key Genes Involved in α-Linolenic Acid Biosynthesis in Perilla frutescens Seed
Cited by: 24
Author(s): Tianyuan Zhang, Chi Song, Li Song, Shang ZhiWei, Sen Yang, Dong Zhang, Wei Sun, Qi Shen, Degang Zhao
Software Mentions: 1
Published: about 7 years ago
10.1186/s12870-018-1479-y
OsWRKY67 positively regulates blast and bacteria blight resistance by direct activation of PR genes in rice
Cited by: 42
Author(s): Qing Liu, Xia Li, Shijuan Yan, Ting Yu, Yang Jiao, Jingfang Dong, Shaohong Zhang, Junliang Zhao, Ting Yang, Xingxue Mao, Xiaoyuan Zhu, Bin Liu
Software Mentions: 1
Published: about 6 years ago
10.3389/fpls.2019.01147
Genome-Wide Identification of Calcium-Dependent Protein Kinases in Chlamydomonas reinhardtii and Functional Analyses in Nitrogen Deficiency-Induced Oil Accumulation
Cited by: 9
Author(s): Yajun Li, Xiaowen Fei, Hao‐Fu Dai, Jiangyue Li, Wei Zhu, Xiaodong Deng
Software Mentions: 1
Published: about 5 years ago
10.3389/fpls.2017.00109
Differential Gene Expression Analysis in Polygonum minus Leaf upon 24 h of Methyl Jasmonate Elicitation
Cited by: 24
Author(s): Reyhaneh Rahnamaie-Tajadod, Kok Keong Loke, Hoe-Han Goh, Normah Mohd Noor
Software Mentions: 1
Published: almost 8 years ago
10.3389/fpls.2015.00389
Molecular characterization of SQUAMOSA PROMOTER BINDING PROTEIN-LIKE (SPL) gene family from Citrus and the effect of fruit load on their expression
Cited by: 37
Author(s): Liron Shalom, Lyudmila Shlizerman, Naftali Zur, Adi Doron‐Faigenboim, Eduardo Blumwald, Avi Sadka
Software Mentions: 1
Published: over 9 years ago
10.3389/fpls.2021.625729
A Meta-Analysis Reveals Opposite Effects of Biotic and Abiotic Stresses on Transcript Levels of Arabidopsis Intracellular Immune Receptor Genes
Cited by: 11
Author(s): Leiyun Yang, Zhixue Wang, Jian Hua
Software Mentions: 1
Published: over 3 years ago
10.1186/s13073-021-00968-x
Deep learning in cancer diagnosis, prognosis and treatment selection
Cited by: 197
Author(s): Khoa Tran, Olga Kondrashova, Andrew P. Bradley, Elizabeth D. Williams, John V. Pearson, Nicola Waddell
Software Mentions: 1
Published: about 3 years ago
10.3390/ijms20194933
Transforming Growth Factor-β1 Selectively Recruits microRNAs to the RNA-Induced Silencing Complex and Degrades CFTR mRNA under Permissive Conditions in Human Bronchial Epithelial Cells
Cited by: 13
Author(s): Nilay Mitash, Fangping Mu, Joshua E Donovan, Michael M. Myerburg, Sarangarajan Ranganathan, Catherine M. Greene, Agnieszka Swiatecka‐Urban
Software Mentions: 1
Published: about 5 years ago
10.1371/journal.pone.0110712
Genome-Scale Transcriptome Analysis of the Alpine “Glasshouse” Plant Rheum nobile (Polygonaceae) with Special Translucent Bracts
Cited by: 8
Author(s): Lizhong Wang, Haihong Zhou, Han jinsoo, Richard I. Milne, Mingyu Wang, Bingbing Liu
Software Mentions: 1
Published: about 10 years ago
10.1186/s12870-021-03108-0
Transcriptomic analysis to reveal the differentially expressed miRNA targets and their miRNAs in response to Ralstonia solanacearum in ginger species
Cited by: 9
Author(s): Mohandas Snigdha, D. Prasath
Software Mentions: 1
Published: over 3 years ago
10.3389/fpls.2018.00252
The Novel Secreted Meloidogyne incognita Effector MiISE6 Targets the Host Nucleus and Facilitates Parasitism in Arabidopsis
Cited by: 27
Author(s): Qianqian Shi, Zhenchuan Mao, Xiaoping Zhang, Jian Ling, Runmao Lin, Xi Zhang, Rui Li, Yunsheng Wang, Youyou Yang, Xinyue Cheng, Bingyan Xie
Software Mentions: 1
Published: over 6 years ago
10.1371/journal.pone.0124823
Variation in the Ovine Abomasal Lymph Node Transcriptome between Breeds Known to Differ in Resistance to the Gastrointestinal Nematode
Cited by: 15
Author(s): Albin Mostaque Ahmed, Barbara Good, J. P. Hanrahan, Paul A. McGettigan, John A. Browne, Orla M. Keane, Bojlul Bahar, Jai Prakash Mehta, Bryan Markey, Amanda J. Lohan, T. Sweeney
Software Mentions: 1
Published: over 9 years ago
10.3389/fpls.2016.00432
Using Transcriptomics to Identify Differential Gene Expression in Response to Salinity among Australian Phragmites australis Clones
Cited by: 18
Author(s): Gareth D. Holmes, Nathan E. Hall, Anthony R. Gendall, Paul I. Boon, Elizabeth A. James
Software Mentions: 1
Published: over 8 years ago
10.3389/fpls.2016.01338
Identification of Candidate Anthocyanin-Related Genes by Transcriptomic Analysis of ‘Furongli’ Plum (Prunus salicina Lindl.) during Fruit Ripening Using RNA-Seq
Cited by: 46
Author(s): Zhi‐Zhen Fang, Dan‐Rong Zhou, Xinfu Ye, Cuicui Jiang, Shao‐Lin Pan
Software Mentions: 1
Published: about 8 years ago
10.1186/2047-217X-3-20
miRNA Temporal Analyzer (mirnaTA): a bioinformatics tool for identifying differentially expressed microRNAs in temporal studies using normal quantile transformation
Cited by: 17
Author(s): Regina Z. Cer, J. Enrique Herrera-Galeano, Joseph J. Anderson, Kimberly A. Bishop‐Lilly, Vishwesh Mokashi
Software Mentions: 1
Published: about 10 years ago
10.1186/s12870-018-1336-z
Transcriptome characterization of moso bamboo (Phyllostachys edulis) seedlings in response to exogenous gibberellin applications
Cited by: 51
Author(s): Hangxiao Zhang, Huihui Wang, Qiang Zhu, Yanfeng Gao, Huiyuan Wang, Liangzhen Zhao, Yongsheng Wang, Feihu Xi, Wenfei Wang, Yanqiu Yang, Chentao Lin, Lianfeng Gu
Software Mentions: 1
Published: over 6 years ago
10.1093/gigascience/gix031
Comparative genomic analysis of SET domain family reveals the origin, expansion, and putative function of the arthropod-specific SmydA genes as histone modifiers in insects
Cited by: 15
Author(s): Feng Jiang, Qing Liu, Yanli Wang, Jie Zhang, Huimin Wang, Tianqi Song, Meiling Yang, Xianhui Wang, Le Kang
Software Mentions: 1
Published: over 7 years ago
10.3389/fgene.2020.00809
Comparative microRNA Transcriptomes in Domestic Goats Reveal Acclimatization to High Altitude
Cited by: 6
Author(s): Siyuan Feng, Jideng Ma, Keren Long, Jinwei Zhang, Wanling Qiu, Yan Li, Long Jin, Xun Wang, Anan Jiang, Lingyan Liu, Weihang Xiao, Xuewei Li, Qianzi Tang, Mingzhou Li
Software Mentions: 1
Published: over 4 years ago
10.3390/plants10081535
Transcriptome Analysis Reveals Key Genes Involved in Weevil Resistance in the Hexaploid Sweetpotato
Cited by: 3
Author(s): Kanoko Nokihara, Yoshihiro Okada, Shinichiro Ohata, Yuki Monden
Software Mentions: 1
Published: over 3 years ago
10.3389/fgene.2019.00083
Transcriptomic Analysis of High Fat Diet Fed Mouse Brain Cortex
Cited by: 27
Author(s): Gil-Sang Yoon, Kyung A Cho, Jeong Sup Song, Young‐Kook Kim
Software Mentions: 1
Published: almost 6 years ago
10.3389/fgene.2021.684349
Identification of a Novel Immune-Related CpG Methylation Signature to Predict Prognosis in Stage II/III Colorectal Cancer
Cited by: 3
Author(s): Feng Chen, Lijuan Pei, Siyao Liu, Yan Lin, Xinyin Han, Erhong Meng, Xintong Wang, Shuai Hong, Dongliang Wang, Feide Liu, Fei Yang, Guangda Wang
Software Mentions: 1
Published: over 3 years ago
10.3389/fgene.2020.00996
Characterization of Drought-Responsive Transcriptome During Seed Germination in Adzuki Bean (Vigna angularis L.) by PacBio SMRT and Illumina Sequencing
Cited by: 14
Author(s): Zhenzhen Zhu, Hongwei Chen, Kui Xie, Changyan Liu, Li Li, Liangjun Liu, Xuesong Han, Jiao Chen, Zhengjie Wan, Aihua Sha
Software Mentions: 1
Published: about 4 years ago
10.1186/s12886-020-01348-6
Different transcriptome profiles between human retinoblastoma Y79 cells and an etoposide-resistant subline reveal a chemoresistance mechanism
Cited by: 13
Author(s): Wei Song, S. Q. Zheng, Hong Yao, Xiao Zhou, Rui Li, Cheng Yue Zhang, Jun Zhao, Lie Wei Wang, Rong Shao, Liang Li
Software Mentions: 1
Published: over 4 years ago
10.3389/fgene.2019.01334
Comparative Transcriptome Profiling of the Loaches Triplophysa bleekeri and Triplophysa rosa Reveals Potential Mechanisms of Eye Degeneration
Cited by: 7
Author(s): Qingyuan Zhao, Renyi Zhang, Yingqi Xiao, Ying-Feng Niu, Feng Shao, Yanping Li, Zhé Peng
Software Mentions: 1
Published: almost 5 years ago
10.1186/s12868-018-0443-y
Blue light induces a neuroprotective gene expression program in Drosophila photoreceptors
Cited by: 29
Author(s): Hana Hall, Junwei Ma, Sudhanshu Shekhar, Walter D. Leon-Salas, Vikki M. Weake
Software Mentions: 1
Published: over 6 years ago
10.1093/gigascience/giz157
Genome and population sequencing of a chromosome-level genome assembly of the Chinese tapertail anchovy (Coilia nasus) provides novel insights into migratory adaptation
Cited by: 21
Author(s): Gaosi Xu, Chao Bian, Zhou Nie, Jia Li, Yuyu Wang, Donghui Xu, Xinxin You, Hongbo Liu, Jiancao Gao, Hongxia Li, Kai Liu, Jian Yang, Quanjie Li, Nailin Shao, Yanbing Zhuang, Di‐An Fang, Tao Jiang, Yunyun Lv, Yu Huang, Ruobo Gu, Junmin Xu, Wei Ge, Qiong Shi, Pao Xu
Software Mentions: 1
Published: almost 5 years ago
10.1186/s12870-021-02827-8
Transcriptomic and chemical analyses to identify candidate genes involved in color variation of sainfoin flowers
Cited by: 5
Author(s): Yu Qiao, Qiming Cheng, Yutong Zhang, Yan Wang, Fengyan Yi, Fengling Shi
Software Mentions: 1
Published: almost 4 years ago
10.3389/fgene.2021.629946
Feature Selection for Breast Cancer Classification by Integrating Somatic Mutation and Gene Expression
Cited by: 8
Author(s): Qin Jiang, Min Jin
Software Mentions: 1
Published: over 3 years ago
10.1093/gigascience/giaa160
A chromosome-level genome assembly of the oriental river prawn, <i>Macrobrachium nipponense</i>
Cited by: 25
Author(s): Shubo Jin, Chao Bian, Sufei Jiang, Kai Han, Yiwei Xiong, Wenyi Zhang, Chengcheng Shi, Hui Qiao, Zijian Gao, Ruihan Li, Yu Huang, Yongsheng Gong, Xinxin You, Guangyi Fan, Qiong Shi, Hongtuo Fu
Software Mentions: 1
Published: almost 4 years ago
10.1186/s12920-020-0727-9
Mitochondrial tRNA methylation in Alzheimer’s disease and progressive supranuclear palsy
Cited by: 9
Author(s): Talisa Silzer, Gita A. Pathak, Nicole Phillips
Software Mentions: 1
Published: over 4 years ago
10.3389/fgene.2020.00255
Context-Specific Coordinately Regulatory Network Prioritize Breast Cancer Genetic Risk Factors
Cited by: 2
Author(s): Shuyuan Wang, Wencan Wang, Weida Wang, Peng Xia, Lei Yu, Ye Lu, Xiaowen Chen, Chaohan Xu, Liu Hui
Software Mentions: 1
Published: over 4 years ago
10.3390/ijms19030852
Transcriptome Analysis Identifies a 140 kb Region of Chromosome 3B Containing Genes Specific to Fusarium Head Blight Resistance in Wheat
Cited by: 13
Author(s): Xin Li, Shengyi Zhong, Wanquan Chen, Syeda Akash Fatima, Qianglan Huang, Qing Li, Feiquan Tan, Peigao Luo
Software Mentions: 1
Published: over 6 years ago
10.1080/19490976.2020.1862612
Dietary betaine prevents obesity through gut microbiota-drived microRNA-378a family
Cited by: 42
Author(s): Jing Du, Peiwen Zhang, Jiang Luo, Linyuan Shen, Shunhua Zhang, Hao Gu, Jin He, Linghui Wang, Xue Zhao, Mailing Gan, Yang Liu, Lili Niu, Ye Zhao, Qianzi Tang, Guoqing Tang, Dongmei Jiang, Yanzhi Jiang, Mingzhou Li, Anan Jiang, Long Jin, Jideng Ma, Surong Shuai, Lin Bai, Jinyong Wang, Bo Zeng, De Wu, Xuewei Li, Li Zhu
Software Mentions: 1
Published: almost 4 years ago
10.1080/19490976.2021.1887720
Gut microbiota shape the inflammatory response in mice with an epithelial defect
Cited by: 11
Author(s): Ran Wang, Md. Moniruzzaman, Kuan Yau Wong, Percival Wiid, Alexa Harding, Rabina Giri, Wendy Hui Tong, Jacqueline Creagh, Jakob Begun, Michael A. McGuckin, Sumaira Z. Hasnain
Software Mentions: 1
Published: almost 4 years ago
10.1186/s13099-020-00390-5
Transcriptome changes and polymyxin resistance of acid-adapted Escherichia coli O157:H7 ATCC 43889
Cited by: 2
Author(s): Daekeun Hwang, Seung Min Kim, Hyun Jung Kim
Software Mentions: 1
Published: almost 4 years ago
10.3390/nu10111721
The Effect of Dietary Mushroom Agaricus bisporus on Intestinal Microbiota Composition and Host Immunological Function
Cited by: 25
Author(s): Gloria Solano‐Aguilar, Saebyeol Jang, Sukla Lakshman, Richi Gupta, Ethiopia Beshah, Masoumeh Sikaroodi, Bryan T. Vinyard, Aleksey Molokin, Patrick M. Gillevet, Joseph F. Urban
Software Mentions: 1
Published: about 6 years ago
10.1002/hed.26089
MicroRNA‐based risk scoring system to identify early‐stage oral squamous cell carcinoma patients at high‐risk for cancer‐specific mortality
Cited by: 23
Author(s): Angela J. Yoon, Shuang Wang, David I. Kutler, Richard D. Carvajal, Elizabeth Philipone, Tian Wang, Dominic LaRoche, Brenda Y. Hernandez, Bradley D. McDowell, Claire Stewart, Fatemeh Momen‐Heravi, Regina M. Santella
Software Mentions: 1
Published: almost 5 years ago
10.3389/fgene.2020.00883
Progesterone Receptor Signaling Selectively Modulates Cytokine-Induced Global Gene Expression in Human Cervical Stromal Cells
Cited by: 2
Author(s): Douglas A. Kniss, Taryn Summerfield
Software Mentions: 1
Published: about 4 years ago
10.1016/j.heliyon.2021.e06307
Cellular and molecular profiles of anterior nervous system regeneration in Diopatra claparedii Grube, 1878 (Annelida, Polychaeta)
Cited by: 0
Author(s): Mohd Ulul Ilmie Ahmad Nazri, Mohd Hafizi Mahmud, Basri Saidi, Mohd-Noor Mat-Isa, Zolkapli Ehsak, Bin Haji Ross Othman, Izwandy Idris, Wan Iryani Wan Ismail
Software Mentions: 1
Published: almost 4 years ago
10.3389/fgene.2020.00607
Bioinformatics Analysis Finds Immune Gene Markers Related to the Prognosis of Bladder Cancer
Cited by: 22
Author(s): Xingyu Chen, Y. Jin, Lian Gong, Dong He, YaXing Cheng, Mengqing Xiao, Yuxing Zhu, Zhanwang Wang, Ke Cao
Software Mentions: 1
Published: over 4 years ago
10.3389/fgene.2017.00193
Analysis of the Expression of Repetitive DNA Elements in Osteosarcoma
Cited by: 28
Author(s): Xuan Dung Ho, Nguyen Hoang, Le Huy Trinh, Ene Reimann, Ele Prans, Gea Kõks, Katre Maasalu, Van Quang Le, Văn Hiếu Nguyễn, Nghi T N Le, Phuong Phung, Aare Märtson, Freddy Lättekivi, Sulev Kõks
Software Mentions: 1
Published: almost 7 years ago
10.1186/s41065-020-00122-4
Comparative transcriptome analysis reveals gene expression differences between two peach cultivars under saline-alkaline stress
Cited by: 9
Author(s): Shouqin Sun, Haiyan Song, Jing Li, Dong Chen, Tu MeiYan, Guanghong Jia, Guoqing Yu, Zhiqin Zhou
Software Mentions: 1
Published: over 4 years ago
10.3389/fgene.2019.01308
Dynamic Transcriptomic Analysis of Breast Muscle Development From the Embryonic to Post-hatching Periods in Chickens
Cited by: 17
Author(s): Jie Liu, Qiuxia Lei, Fuwei Li, Yan Zhou, Jinbo Gao, Wei Liu, Haitang Han, Deliang Cao
Software Mentions: 1
Published: almost 5 years ago
10.1186/s12867-017-0080-5
Identification of microRNAs and their response to the stress of plant allelochemicals in Aphis gossypii (Hemiptera: Aphididae)
Cited by: 21
Author(s): Kangsheng Ma, Fen Li, Ying Liu, Pingzhuo Liang, Xuewei Chen, Xiwu Gao
Software Mentions: 1
Published: almost 8 years ago
10.3389/fgene.2020.598714
Transcriptional Analysis of Metabolic Pathways and Regulatory Mechanisms of Essential Oil Biosynthesis in the Leaves of Cinnamomum camphora (L.) Presl
Cited by: 18
Author(s): Jiexi Hou, Jie Zhang, Beihong Zhang, Xiaofang Jin, Haiyan Zhang, Zhinong Jin
Software Mentions: 1
Published: about 4 years ago
10.3389/fgene.2021.690598
Immune-Related Nine-MicroRNA Signature for Predicting the Prognosis of Gastric Cancer
Cited by: 8
Author(s): Jingxuan Xu, Jian Ming Wen, Shuangquan Li, Xian Shen, Tianyan You, Yueyue Huang, Chongyong Xu, Ying‐Zheng Zhao
Software Mentions: 1
Published: over 3 years ago
10.3389/fgene.2021.662751
Omics Profiling of S2P Mutant Fibroblasts as a Mean to Unravel the Pathomechanism and Molecular Signatures of X-Linked MBTPS2 Osteogenesis Imperfecta
Cited by: 1
Author(s): Pei Jin Lim, Severin Marfurt, Uschi Lindert, Lennart Opitz, Timothée Ndarugendamwo, Pakeerathan Srikanthan, Martin Poms, Martin Hersberger, Claus-Dieter Langhans, Dorothea Haas, Marianne Rohrbach, Cecilia Giunta
Software Mentions: 1
Published: over 3 years ago
10.3389/fgene.2021.695245
Characterization of the Potential Role of NTPCR in Epithelial Ovarian Cancer by Integrating Transcriptomic and Metabolomic Analysis
Cited by: 2
Author(s): Hongjing Shang, Huizhi Zhang, Ziyao Ren, Hongjiang Zhao, Zhifen Zhang, Jinyi Tong
Software Mentions: 1
Published: about 3 years ago
10.3390/ijms19030910
In-Silico Integration Approach to Identify a Key miRNA Regulating a Gene Network in Aggressive Prostate Cancer
Cited by: 11
Author(s): Claudia Cava, Gloria Bertoli, Antonio Colaprico, Gianluca Bontempi, Giancarlo Mauri, Isabella Castiglioni
Software Mentions: 1
Published: over 6 years ago
10.3390/ijms21113982
AMPK Profiling in Rodent and Human Pancreatic Beta-Cells under Nutrient-Rich Metabolic Stress
Cited by: 15
Author(s): Thierry Brun, Cecilia Jiménez‐Sánchez, Jesper Grud Skat Madsen, Noushin Hadadi, Dominique Duhamel, Clarissa Bartley, Lucie Oberhauser, Mirko Trajkovski, Susanne Mandrup, Pierre Maechler
Software Mentions: 1
Published: over 4 years ago
10.1002/mbo3.836
Metabolic comparison of aerial and submerged mycelia formed in the liquid surface culture of <i>Cordyceps militaris</i>
Cited by: 14
Author(s): Ahmad Suparmin, Tatsuya Kato, Hiroyuki Takemoto, Enoch Y. Park
Software Mentions: 1
Published: over 5 years ago
10.1371/journal.pone.0134419
Uncovering the Differential Molecular Basis of Adaptive Diversity in Three Echinochloa Leaf Transcriptomes
Cited by: 25
Author(s): Gyoungju Nah, Ji-Hoon Im, Jin-Won Kim, Hae-Rim Park, Min-Jung Yook, Tae-Jin Yang, Albert J. Fischer, Do-Soon Kim
Software Mentions: 1
Published: over 9 years ago
10.3389/fgene.2019.00707
Target Genes of Autism Risk Loci in Brain Frontal Cortex
Cited by: 13
Author(s): Yan Sun, Xueming Yao, Michael March, Xinyi Meng, Junyi Li, Zhi Wei, Patrick Sleiman, Hákon Hákonarson, Qianghua Xia, Jin Li
Software Mentions: 1
Published: over 5 years ago
10.3390/ijms19061810
Differential Expression and Pathway Analysis in Drug-Resistant Triple-Negative Breast Cancer Cell Lines Using RNASeq Analysis
Cited by: 22
Author(s): Safa Shaheen, Febin Fawaz, Shaheen Shah, Dietrich Büsselberg
Software Mentions: 1
Published: over 6 years ago
10.3389/fgene.2019.00055
Physiological and Transcriptome Analyses Reveal Short-Term Responses and Formation of Memory Under Drought Stress in Rice
Cited by: 90
Author(s): Ping Li, Hong Yang, Lu Wang, Haoju Liu, Heqiang Huo, Chengjun Zhang, Aizhong Liu, Andan Zhu, Jin‐Yong Hu, Yongjun Lin, Li Liu
Software Mentions: 1
Published: almost 6 years ago
10.3390/ijms19061594
Candidate Genes for Yellow Leaf Color in Common Wheat (Triticum aestivum L.) and Major Related Metabolic Pathways according to Transcriptome Profiling
Cited by: 58
Author(s): Hui-Yu Wu, Narong Shi, Xuyao An, Liu Cong, Hongfei Fu, Lanqing Cao, Yi Feng, Dianjun Sun, Lingli Zhang
Software Mentions: 1
Published: over 6 years ago
10.3390/ijms19061626
Oxaloacetate Ameliorates Chemical Liver Injury via Oxidative Stress Reduction and Enhancement of Bioenergetic Fluxes
Cited by: 19
Author(s): Ye Kuang, Xing Han, Mu Xu, Yue Wang, Yuxiang Zhao, Qing Yang
Software Mentions: 1
Published: over 6 years ago
10.3389/fgene.2021.593515
Biologically Enhanced Genome-Wide Association Study Provides Further Evidence for Candidate Loci and Discovers Novel Loci That Influence Risk of Anterior Cruciate Ligament Rupture in a Dog Model
Cited by: 7
Author(s): Louise Baker, Mehdi Momen, Rachel M. McNally, Mark E. Berres, Emily E. Binversie, Susannah J. Sample, Peter Muir
Software Mentions: 1
Published: over 3 years ago